Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MCF-7
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
antibody antibodydescription
Rabbit polyclonal. Antibody Target: CTCF
antibody targetdescription
CTCF zinc finger transcription factor. A sequence specific DNA binding protein that functions as an insulator, blocking enhancer activity. It has also been suggested to block the spreading of chromatin structure in certain instances.
antibody vendorname
Millipore
antibody vendorid
07-729
controlid
wgEncodeEH000589
labversion
baseAlignCounts.pl v 1,fseq v 1.84, iff_MCF7,p-value cutoff: 0.05
replicate
1,2
cell sex
F
treatment
serum_starved_media
treatment description
Grown with normal serum levels (10%), then switched to media containing low level of FBS (0.05%) for 72 hours
antibody
CTCF
antibody antibodydescription
rabbit polyclonal. Antibody Target: CTCF
antibody targetdescription
CTCF zinc finger transcription factor. A sequence specific DNA binding protein that functions as an insulator, blocking enhancer activity. It has also been suggested to block the spreading of chromatin structure in certain instances.
antibody vendorname
Millipore
antibody vendorid
07-729
controlid
wgEncodeEH000589
labversion
baseAlignCounts.pl v 1

Sequenced DNA Library

library_name
GSM1006878: UT-A_ChipSeq_MCF-7_serum_starved_media_CTCF
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
77871620
Reads aligned (%)
73.8
Duplicates removed (%)
24.7
Number of peaks
88692 (qval < 1E-05)

hg38

Number of total reads
77871620
Reads aligned (%)
74.3
Duplicates removed (%)
24.5
Number of peaks
88614 (qval < 1E-05)

Base call quality data from DBCLS SRA